Adding wrapper to run sort and process_sims_by_source_mem from pipeline_sims_to_abundance stage script.
Created pipeline_sims_to_abundance stage script which right now just runs process_rna_sims but will also call a wrapper script to calculate protein abundances and another wrapper script to generate the abundance summary files.
Merge pull request #90 from jaredbischof/master

Adding process_rna_sims wrapper bin script and pipeline_sims_to_abundance stage script.